Multiple sequence alignment - TraesCS3A01G395900

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3A01G395900 chr3A 100.000 4654 0 0 1 4654 643182261 643186914 0.000000e+00 8595.0
1 TraesCS3A01G395900 chr3A 88.889 72 5 3 2381 2451 269394381 269394312 8.300000e-13 86.1
2 TraesCS3A01G395900 chr3D 95.188 2390 55 22 1 2342 505048067 505050444 0.000000e+00 3722.0
3 TraesCS3A01G395900 chr3D 94.947 1880 39 16 2447 4291 505050443 505052301 0.000000e+00 2894.0
4 TraesCS3A01G395900 chr3D 88.636 88 5 5 2816 2900 100046113 100046198 8.240000e-18 102.0
5 TraesCS3A01G395900 chr3D 87.500 88 8 3 2325 2411 445342940 445343025 1.070000e-16 99.0
6 TraesCS3A01G395900 chr3D 80.909 110 10 4 2339 2448 140542302 140542204 4.990000e-10 76.8
7 TraesCS3A01G395900 chr3B 89.871 1787 109 25 2902 4654 666785567 666787315 0.000000e+00 2231.0
8 TraesCS3A01G395900 chr3B 94.210 1399 61 10 959 2342 666783758 666785151 0.000000e+00 2117.0
9 TraesCS3A01G395900 chr3B 90.020 992 55 16 3 958 666782731 666783714 0.000000e+00 1243.0
10 TraesCS3A01G395900 chr3B 90.144 416 38 2 2447 2859 666785150 666785565 5.300000e-149 538.0
11 TraesCS3A01G395900 chr3B 85.987 314 43 1 4341 4654 561045237 561045549 7.460000e-88 335.0
12 TraesCS3A01G395900 chr3B 84.426 122 8 2 2327 2448 738697158 738697268 4.920000e-20 110.0
13 TraesCS3A01G395900 chr3B 87.778 90 6 5 2816 2902 127291955 127291868 2.960000e-17 100.0
14 TraesCS3A01G395900 chr3B 92.647 68 5 0 2341 2408 740380091 740380024 1.070000e-16 99.0
15 TraesCS3A01G395900 chr4A 86.751 317 37 5 4339 4654 689651435 689651123 9.580000e-92 348.0
16 TraesCS3A01G395900 chr4A 85.714 315 43 2 4340 4654 713626166 713626478 9.650000e-87 331.0
17 TraesCS3A01G395900 chr4A 89.773 88 4 5 2816 2900 400405139 400405224 1.770000e-19 108.0
18 TraesCS3A01G395900 chr1D 86.392 316 41 2 4339 4654 60314225 60313912 1.240000e-90 344.0
19 TraesCS3A01G395900 chr7B 86.076 316 43 1 4339 4654 221322062 221322376 5.770000e-89 339.0
20 TraesCS3A01G395900 chr7B 82.353 119 14 6 2334 2451 701335272 701335160 3.830000e-16 97.1
21 TraesCS3A01G395900 chr2B 86.076 316 43 1 4339 4654 67356885 67357199 5.770000e-89 339.0
22 TraesCS3A01G395900 chr2B 92.941 85 5 1 2815 2898 765397940 765398024 6.320000e-24 122.0
23 TraesCS3A01G395900 chr2B 83.607 122 7 5 2328 2448 683271078 683270969 8.240000e-18 102.0
24 TraesCS3A01G395900 chr2B 88.000 75 5 4 2323 2393 73463104 73463178 8.300000e-13 86.1
25 TraesCS3A01G395900 chr2D 84.494 316 45 2 4339 4654 40780414 40780103 4.520000e-80 309.0
26 TraesCS3A01G395900 chr2D 86.735 98 8 5 2806 2900 621300781 621300876 2.290000e-18 104.0
27 TraesCS3A01G395900 chr1B 84.615 312 46 2 4341 4652 427598250 427598559 4.520000e-80 309.0
28 TraesCS3A01G395900 chr1B 97.674 43 1 0 2407 2449 526712124 526712166 1.800000e-09 75.0
29 TraesCS3A01G395900 chr4B 96.154 78 2 1 2335 2411 392040322 392040399 4.890000e-25 126.0
30 TraesCS3A01G395900 chr7D 93.590 78 3 2 2336 2411 119737346 119737423 1.060000e-21 115.0
31 TraesCS3A01G395900 chr7D 94.667 75 3 1 2338 2411 311884473 311884547 1.060000e-21 115.0
32 TraesCS3A01G395900 chr7D 88.636 88 5 5 2816 2900 476515232 476515317 8.240000e-18 102.0
33 TraesCS3A01G395900 chr5D 94.667 75 3 1 2338 2411 223895847 223895921 1.060000e-21 115.0
34 TraesCS3A01G395900 chr5D 87.156 109 3 2 2340 2448 266749453 266749356 3.810000e-21 113.0
35 TraesCS3A01G395900 chr6B 84.615 117 12 5 2341 2453 171209462 171209348 1.370000e-20 111.0
36 TraesCS3A01G395900 chr6B 90.909 77 5 2 2320 2394 617177182 617177258 8.240000e-18 102.0
37 TraesCS3A01G395900 chr6B 82.759 116 8 5 2336 2451 218218263 218218160 4.960000e-15 93.5
38 TraesCS3A01G395900 chr5B 88.095 84 4 5 2319 2402 70445135 70445058 1.380000e-15 95.3
39 TraesCS3A01G395900 chr5B 90.278 72 6 1 2341 2411 441406737 441406666 4.960000e-15 93.5
40 TraesCS3A01G395900 chr5B 86.747 83 8 3 2324 2405 438763972 438763892 6.410000e-14 89.8
41 TraesCS3A01G395900 chr1A 86.364 88 7 5 2816 2900 138607838 138607923 1.780000e-14 91.6
42 TraesCS3A01G395900 chrUn 81.982 111 3 6 2341 2450 311733155 311733061 1.390000e-10 78.7
43 TraesCS3A01G395900 chr7A 87.719 57 6 1 2393 2448 124792571 124792627 1.080000e-06 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G395900 chr3A 643182261 643186914 4653 False 8595.00 8595 100.00000 1 4654 1 chr3A.!!$F1 4653
1 TraesCS3A01G395900 chr3D 505048067 505052301 4234 False 3308.00 3722 95.06750 1 4291 2 chr3D.!!$F3 4290
2 TraesCS3A01G395900 chr3B 666782731 666787315 4584 False 1532.25 2231 91.06125 3 4654 4 chr3B.!!$F3 4651

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
701 763 0.313987 TCCCGCGCTGTAGTATGATG 59.686 55.000 5.56 0.0 0.0 3.07 F
992 1100 1.537776 GGAGATGACATCGGTGCTCTG 60.538 57.143 9.77 0.0 0.0 3.35 F
2359 2482 1.961133 TACTCCCTCCGTCCCAAATT 58.039 50.000 0.00 0.0 0.0 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2433 2556 0.033306 AGAACTACTCCCTCCGTCCC 60.033 60.000 0.0 0.0 0.00 4.46 R
2434 2557 1.064537 AGAGAACTACTCCCTCCGTCC 60.065 57.143 0.0 0.0 45.96 4.79 R
4073 4238 0.030908 GCCAGGAGGATCGTAACTCG 59.969 60.000 0.0 0.0 37.82 4.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 65 1.455786 CAGCTCGAAGGTAAACACACG 59.544 52.381 0.00 0.00 0.00 4.49
57 67 0.433492 CTCGAAGGTAAACACACGCG 59.567 55.000 3.53 3.53 0.00 6.01
60 70 0.383860 GAAGGTAAACACACGCGCAC 60.384 55.000 5.73 0.00 0.00 5.34
61 71 1.090625 AAGGTAAACACACGCGCACA 61.091 50.000 5.73 0.00 0.00 4.57
62 72 1.368374 GGTAAACACACGCGCACAC 60.368 57.895 5.73 0.00 0.00 3.82
260 296 3.692406 GCCTCCCACTCCGTTCGT 61.692 66.667 0.00 0.00 0.00 3.85
701 763 0.313987 TCCCGCGCTGTAGTATGATG 59.686 55.000 5.56 0.00 0.00 3.07
715 777 9.794685 CTGTAGTATGATGGATGTGATATGTAC 57.205 37.037 0.00 0.00 0.00 2.90
729 791 6.314896 TGTGATATGTACATGTGCAAATTCGA 59.685 34.615 20.75 6.24 0.00 3.71
732 794 5.565592 ATGTACATGTGCAAATTCGATGT 57.434 34.783 20.75 0.00 0.00 3.06
735 797 4.771590 ACATGTGCAAATTCGATGTTCT 57.228 36.364 0.00 0.00 0.00 3.01
760 822 6.088016 AGATAGAGCAAAGTCTAGCTGATG 57.912 41.667 0.00 0.00 42.79 3.07
769 833 4.035278 AGTCTAGCTGATGTACGCTTTC 57.965 45.455 0.00 0.00 37.68 2.62
774 838 2.939103 AGCTGATGTACGCTTTCAATCC 59.061 45.455 0.00 0.00 31.17 3.01
794 858 2.604914 CCGTGAGATGATTTCTGGTTCG 59.395 50.000 0.00 0.00 33.74 3.95
984 1092 4.948847 TCATTGGTTAGGAGATGACATCG 58.051 43.478 9.77 0.00 0.00 3.84
992 1100 1.537776 GGAGATGACATCGGTGCTCTG 60.538 57.143 9.77 0.00 0.00 3.35
1494 1616 5.136392 AGGGTCTTATGGGAGAGTGTACTAT 59.864 44.000 0.00 0.00 0.00 2.12
1507 1629 5.016051 AGTGTACTATGCTGTCCTTGATG 57.984 43.478 0.00 0.00 0.00 3.07
1713 1835 2.877168 GAGTCCATCAGCAATGATCCAC 59.123 50.000 0.96 0.00 37.59 4.02
1965 2088 8.408601 AGCTATTGTGGATTATTTGTAAGCAAG 58.591 33.333 0.00 0.00 35.82 4.01
2350 2473 8.842358 TTTATTGCTAAAATATACTCCCTCCG 57.158 34.615 0.00 0.00 0.00 4.63
2351 2474 5.881923 TTGCTAAAATATACTCCCTCCGT 57.118 39.130 0.00 0.00 0.00 4.69
2352 2475 5.464030 TGCTAAAATATACTCCCTCCGTC 57.536 43.478 0.00 0.00 0.00 4.79
2353 2476 4.282703 TGCTAAAATATACTCCCTCCGTCC 59.717 45.833 0.00 0.00 0.00 4.79
2354 2477 4.322574 GCTAAAATATACTCCCTCCGTCCC 60.323 50.000 0.00 0.00 0.00 4.46
2355 2478 3.339713 AAATATACTCCCTCCGTCCCA 57.660 47.619 0.00 0.00 0.00 4.37
2356 2479 3.339713 AATATACTCCCTCCGTCCCAA 57.660 47.619 0.00 0.00 0.00 4.12
2357 2480 2.852714 TATACTCCCTCCGTCCCAAA 57.147 50.000 0.00 0.00 0.00 3.28
2358 2481 2.191981 ATACTCCCTCCGTCCCAAAT 57.808 50.000 0.00 0.00 0.00 2.32
2359 2482 1.961133 TACTCCCTCCGTCCCAAATT 58.039 50.000 0.00 0.00 0.00 1.82
2360 2483 1.961133 ACTCCCTCCGTCCCAAATTA 58.039 50.000 0.00 0.00 0.00 1.40
2361 2484 2.271777 ACTCCCTCCGTCCCAAATTAA 58.728 47.619 0.00 0.00 0.00 1.40
2362 2485 2.238898 ACTCCCTCCGTCCCAAATTAAG 59.761 50.000 0.00 0.00 0.00 1.85
2363 2486 2.238898 CTCCCTCCGTCCCAAATTAAGT 59.761 50.000 0.00 0.00 0.00 2.24
2364 2487 2.026636 TCCCTCCGTCCCAAATTAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
2365 2488 2.026636 CCCTCCGTCCCAAATTAAGTGA 60.027 50.000 0.00 0.00 0.00 3.41
2366 2489 3.007635 CCTCCGTCCCAAATTAAGTGAC 58.992 50.000 0.00 0.00 0.00 3.67
2367 2490 3.307480 CCTCCGTCCCAAATTAAGTGACT 60.307 47.826 0.00 0.00 0.00 3.41
2368 2491 3.933332 CTCCGTCCCAAATTAAGTGACTC 59.067 47.826 0.00 0.00 0.00 3.36
2369 2492 3.325425 TCCGTCCCAAATTAAGTGACTCA 59.675 43.478 0.00 0.00 0.00 3.41
2370 2493 4.069304 CCGTCCCAAATTAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
2371 2494 4.083484 CCGTCCCAAATTAAGTGACTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
2372 2495 4.755123 CGTCCCAAATTAAGTGACTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
2373 2496 5.238650 CGTCCCAAATTAAGTGACTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
2374 2497 6.238648 CGTCCCAAATTAAGTGACTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
2375 2498 6.918022 GTCCCAAATTAAGTGACTCAACTTTG 59.082 38.462 0.00 0.00 40.77 2.77
2376 2499 6.605594 TCCCAAATTAAGTGACTCAACTTTGT 59.394 34.615 8.71 0.00 40.77 2.83
2377 2500 7.776030 TCCCAAATTAAGTGACTCAACTTTGTA 59.224 33.333 8.71 0.00 40.77 2.41
2378 2501 7.860872 CCCAAATTAAGTGACTCAACTTTGTAC 59.139 37.037 8.71 0.00 40.77 2.90
2379 2502 8.621286 CCAAATTAAGTGACTCAACTTTGTACT 58.379 33.333 0.00 0.00 40.77 2.73
2382 2505 7.941795 TTAAGTGACTCAACTTTGTACTAGC 57.058 36.000 0.00 0.00 40.77 3.42
2383 2506 5.793030 AGTGACTCAACTTTGTACTAGCT 57.207 39.130 0.00 0.00 0.00 3.32
2384 2507 6.163135 AGTGACTCAACTTTGTACTAGCTT 57.837 37.500 0.00 0.00 0.00 3.74
2385 2508 6.583562 AGTGACTCAACTTTGTACTAGCTTT 58.416 36.000 0.00 0.00 0.00 3.51
2386 2509 7.723324 AGTGACTCAACTTTGTACTAGCTTTA 58.277 34.615 0.00 0.00 0.00 1.85
2387 2510 7.868415 AGTGACTCAACTTTGTACTAGCTTTAG 59.132 37.037 0.00 0.00 0.00 1.85
2388 2511 7.652507 GTGACTCAACTTTGTACTAGCTTTAGT 59.347 37.037 0.00 0.00 0.00 2.24
2389 2512 8.853126 TGACTCAACTTTGTACTAGCTTTAGTA 58.147 33.333 0.00 0.00 0.00 1.82
2436 2559 7.562454 CAAAGTTTAGTCACTTACTTTGGGA 57.438 36.000 24.35 0.00 46.83 4.37
2437 2560 7.415229 CAAAGTTTAGTCACTTACTTTGGGAC 58.585 38.462 24.35 4.70 46.83 4.46
2438 2561 5.295152 AGTTTAGTCACTTACTTTGGGACG 58.705 41.667 0.00 0.00 39.80 4.79
2439 2562 2.833631 AGTCACTTACTTTGGGACGG 57.166 50.000 0.00 0.00 33.35 4.79
2440 2563 2.322658 AGTCACTTACTTTGGGACGGA 58.677 47.619 0.00 0.00 33.35 4.69
2441 2564 2.299297 AGTCACTTACTTTGGGACGGAG 59.701 50.000 0.00 0.00 33.35 4.63
2442 2565 1.621814 TCACTTACTTTGGGACGGAGG 59.378 52.381 0.00 0.00 0.00 4.30
2443 2566 0.981943 ACTTACTTTGGGACGGAGGG 59.018 55.000 0.00 0.00 0.00 4.30
2444 2567 1.272807 CTTACTTTGGGACGGAGGGA 58.727 55.000 0.00 0.00 0.00 4.20
2445 2568 1.207329 CTTACTTTGGGACGGAGGGAG 59.793 57.143 0.00 0.00 0.00 4.30
2607 2730 8.930760 GCATTTATTTGTACATTTTGGCACTTA 58.069 29.630 0.00 0.00 0.00 2.24
2664 2787 4.574674 TGTAGAATCCATCAGCCTGTTT 57.425 40.909 0.00 0.00 0.00 2.83
2788 2914 2.237143 CCTGTACTTGGGCAGAATCAGA 59.763 50.000 0.00 0.00 34.87 3.27
2890 3016 1.330521 CACGGCCAGAATTATGGAACG 59.669 52.381 23.24 24.48 43.57 3.95
2939 3065 4.134563 TGGCCAGAAACTTGTAAACTCTC 58.865 43.478 0.00 0.00 0.00 3.20
2943 3069 4.757149 CCAGAAACTTGTAAACTCTCCCTG 59.243 45.833 0.00 0.00 0.00 4.45
3184 3312 2.513897 GTGGACCATACAGCGCCC 60.514 66.667 2.29 0.00 0.00 6.13
3226 3354 2.564771 ACATGGGTAATGCTCACATCG 58.435 47.619 0.00 0.00 40.22 3.84
3275 3403 1.283029 CACATCCCCATCCTTCACTGT 59.717 52.381 0.00 0.00 0.00 3.55
3339 3467 3.009033 TGCAGGCTACACCAAGATTAACT 59.991 43.478 0.00 0.00 43.14 2.24
3393 3521 1.004918 GGAGGGTGAATATCCGCCG 60.005 63.158 0.00 0.00 37.29 6.46
3472 3607 5.527582 CCACTAGCTTGACAACTTGTAACTT 59.472 40.000 1.04 0.00 0.00 2.66
3487 3622 7.193595 ACTTGTAACTTTTCCATCTGTTTTCG 58.806 34.615 0.00 0.00 0.00 3.46
3628 3763 4.085876 CAGGCAAACTCCACCTGG 57.914 61.111 0.19 0.00 45.97 4.45
3633 3768 1.172812 GCAAACTCCACCTGGACCAC 61.173 60.000 0.00 0.00 39.78 4.16
3636 3771 1.705997 AACTCCACCTGGACCACCAC 61.706 60.000 0.00 0.00 41.77 4.16
3806 3941 0.041135 CGAAGATAGTCCGTCCGCTC 60.041 60.000 0.00 0.00 0.00 5.03
3839 3996 6.566187 GCTGATGATGATATGCAAGTCAAGAC 60.566 42.308 8.25 0.00 0.00 3.01
4010 4175 3.773418 TTCGTTGAGGGTGGATTGTAA 57.227 42.857 0.00 0.00 0.00 2.41
4020 4185 4.105697 AGGGTGGATTGTAAAACTTCCTGA 59.894 41.667 0.00 0.00 0.00 3.86
4035 4200 1.156736 CCTGACGTGCTACTTTTGGG 58.843 55.000 0.00 0.00 0.00 4.12
4038 4203 1.235724 GACGTGCTACTTTTGGGCTT 58.764 50.000 0.00 0.00 0.00 4.35
4039 4204 1.607148 GACGTGCTACTTTTGGGCTTT 59.393 47.619 0.00 0.00 0.00 3.51
4040 4205 1.336755 ACGTGCTACTTTTGGGCTTTG 59.663 47.619 0.00 0.00 0.00 2.77
4041 4206 1.335872 CGTGCTACTTTTGGGCTTTGG 60.336 52.381 0.00 0.00 0.00 3.28
4042 4207 0.678950 TGCTACTTTTGGGCTTTGGC 59.321 50.000 0.00 0.00 37.82 4.52
4070 4235 6.141790 ACTATAGGGGACGAAATACCTTTCT 58.858 40.000 4.43 0.00 38.91 2.52
4071 4236 5.970501 ATAGGGGACGAAATACCTTTCTT 57.029 39.130 0.00 0.00 38.91 2.52
4072 4237 7.786464 ACTATAGGGGACGAAATACCTTTCTTA 59.214 37.037 4.43 0.00 38.91 2.10
4073 4238 5.095145 AGGGGACGAAATACCTTTCTTAC 57.905 43.478 0.00 0.00 38.91 2.34
4074 4239 3.867493 GGGGACGAAATACCTTTCTTACG 59.133 47.826 0.00 0.00 38.91 3.18
4075 4240 4.381932 GGGGACGAAATACCTTTCTTACGA 60.382 45.833 0.00 0.00 38.91 3.43
4076 4241 4.802563 GGGACGAAATACCTTTCTTACGAG 59.197 45.833 0.00 0.00 38.91 4.18
4116 4281 1.404391 GCATCAGCTGAGGAACAATGG 59.596 52.381 31.20 8.34 37.91 3.16
4193 4358 5.175090 TCACTAAGATCATGTAGTCTGCG 57.825 43.478 0.00 0.00 0.00 5.18
4232 4397 9.895138 ACTACGGTATTTTCAACTGGTTTATAT 57.105 29.630 0.00 0.00 0.00 0.86
4235 4400 9.669887 ACGGTATTTTCAACTGGTTTATATACA 57.330 29.630 0.00 0.00 0.00 2.29
4262 4427 2.398554 CCCTCGCATCCAACGGTTG 61.399 63.158 13.86 13.86 0.00 3.77
4292 4457 3.119495 GCAGTTTACCTTGTTAGGGCATG 60.119 47.826 0.00 0.00 46.58 4.06
4294 4459 4.522789 CAGTTTACCTTGTTAGGGCATGTT 59.477 41.667 0.00 0.00 46.58 2.71
4306 4471 1.659794 GCATGTTCAACGGCAACCT 59.340 52.632 0.00 0.00 0.00 3.50
4307 4472 0.664166 GCATGTTCAACGGCAACCTG 60.664 55.000 0.00 0.00 0.00 4.00
4336 4501 3.118112 ACCTCCTGCATCTATTTGTGGAG 60.118 47.826 6.00 6.00 38.27 3.86
4347 4512 2.697147 TTTGTGGAGTGGAGGCAGCC 62.697 60.000 1.84 1.84 0.00 4.85
4354 4519 1.076485 GTGGAGGCAGCCATCCAAT 60.076 57.895 25.77 1.36 46.87 3.16
4360 4525 0.466922 GGCAGCCATCCAATGCTAGT 60.467 55.000 6.55 0.00 39.88 2.57
4379 4544 5.172053 GCTAGTTGCATACATTTCAAATCGC 59.828 40.000 0.00 0.00 42.31 4.58
4392 4557 8.921670 ACATTTCAAATCGCATTTTAACTAACC 58.078 29.630 0.00 0.00 0.00 2.85
4394 4559 5.632959 TCAAATCGCATTTTAACTAACCGG 58.367 37.500 0.00 0.00 0.00 5.28
4408 4573 4.269183 ACTAACCGGATGAAATTCATGCA 58.731 39.130 23.55 6.66 44.18 3.96
4412 4577 5.850557 ACCGGATGAAATTCATGCAAATA 57.149 34.783 23.55 0.00 44.18 1.40
4413 4578 5.835257 ACCGGATGAAATTCATGCAAATAG 58.165 37.500 23.55 9.55 44.18 1.73
4416 4581 5.508489 CGGATGAAATTCATGCAAATAGGCT 60.508 40.000 23.55 0.00 44.18 4.58
4417 4582 5.694910 GGATGAAATTCATGCAAATAGGCTG 59.305 40.000 20.18 0.00 43.55 4.85
4420 4585 7.585579 TGAAATTCATGCAAATAGGCTGATA 57.414 32.000 0.00 0.00 34.04 2.15
4428 4593 8.733458 TCATGCAAATAGGCTGATATTTATCAC 58.267 33.333 0.00 0.00 37.76 3.06
4453 4618 9.643693 ACAATTTGGATAGAAAATAGCACAAAG 57.356 29.630 0.78 0.00 31.22 2.77
4454 4619 9.643693 CAATTTGGATAGAAAATAGCACAAAGT 57.356 29.630 0.00 0.00 31.22 2.66
4463 4628 6.714810 AGAAAATAGCACAAAGTATCCACACA 59.285 34.615 0.00 0.00 0.00 3.72
4467 4632 3.941483 AGCACAAAGTATCCACACATAGC 59.059 43.478 0.00 0.00 0.00 2.97
4481 4646 5.745294 CCACACATAGCATGCAAATTAAGTC 59.255 40.000 21.98 0.00 0.00 3.01
4484 4649 8.183536 CACACATAGCATGCAAATTAAGTCTAA 58.816 33.333 21.98 0.00 0.00 2.10
4514 4679 4.850680 AGGTCTCAAACTCGACTAGATCT 58.149 43.478 0.00 0.00 0.00 2.75
4523 4688 2.739913 CTCGACTAGATCTCGGATGTCC 59.260 54.545 0.00 0.00 0.00 4.02
4526 4691 3.304123 CGACTAGATCTCGGATGTCCAAC 60.304 52.174 0.00 0.00 35.14 3.77
4527 4692 3.632333 ACTAGATCTCGGATGTCCAACA 58.368 45.455 0.00 0.00 35.14 3.33
4528 4693 4.023980 ACTAGATCTCGGATGTCCAACAA 58.976 43.478 0.00 0.00 35.14 2.83
4529 4694 3.981071 AGATCTCGGATGTCCAACAAA 57.019 42.857 0.00 0.00 35.14 2.83
4530 4695 4.286297 AGATCTCGGATGTCCAACAAAA 57.714 40.909 0.00 0.00 35.14 2.44
4544 4709 5.006261 GTCCAACAAAATTTTTCAGGAACGG 59.994 40.000 13.61 2.96 0.00 4.44
4558 4723 0.249489 GAACGGATCATGTCCTCCCG 60.249 60.000 11.12 0.00 45.46 5.14
4571 4736 0.105039 CCTCCCGCACATACTTCTCC 59.895 60.000 0.00 0.00 0.00 3.71
4572 4737 0.105039 CTCCCGCACATACTTCTCCC 59.895 60.000 0.00 0.00 0.00 4.30
4577 4742 1.478510 CGCACATACTTCTCCCTCAGT 59.521 52.381 0.00 0.00 0.00 3.41
4586 4751 3.652869 ACTTCTCCCTCAGTTTCATCCAA 59.347 43.478 0.00 0.00 0.00 3.53
4587 4752 3.703001 TCTCCCTCAGTTTCATCCAAC 57.297 47.619 0.00 0.00 0.00 3.77
4590 4755 1.815003 CCCTCAGTTTCATCCAACAGC 59.185 52.381 0.00 0.00 0.00 4.40
4592 4757 0.874390 TCAGTTTCATCCAACAGCGC 59.126 50.000 0.00 0.00 0.00 5.92
4595 4760 0.040425 GTTTCATCCAACAGCGCGTT 60.040 50.000 8.43 11.00 38.83 4.84
4606 4771 0.518355 CAGCGCGTTCACGTAAATGG 60.518 55.000 8.43 0.00 42.22 3.16
4611 4776 0.094046 CGTTCACGTAAATGGCCGTC 59.906 55.000 0.00 0.00 34.59 4.79
4614 4779 2.110352 CACGTAAATGGCCGTCCCC 61.110 63.158 0.00 0.00 34.59 4.81
4617 4782 1.153025 GTAAATGGCCGTCCCCCTC 60.153 63.158 0.00 0.00 0.00 4.30
4627 4792 4.585216 TCCCCCTCACCCGTGGTT 62.585 66.667 0.00 0.00 31.02 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 65 3.713889 TTTCTTTTTGTTTGTGTGCGC 57.286 38.095 0.00 0.00 0.00 6.09
57 67 8.067189 TCTTTTCTTTTCTTTTTGTTTGTGTGC 58.933 29.630 0.00 0.00 0.00 4.57
87 99 5.014755 TCCCCTGCCTTTTTGAACTCTTATA 59.985 40.000 0.00 0.00 0.00 0.98
88 100 4.089361 CCCCTGCCTTTTTGAACTCTTAT 58.911 43.478 0.00 0.00 0.00 1.73
107 119 2.457080 CGTTTCGCTCTCTTTCCCC 58.543 57.895 0.00 0.00 0.00 4.81
260 296 2.997584 CGGAGGAGGAGGGGACAGA 61.998 68.421 0.00 0.00 0.00 3.41
375 412 0.746563 AACCGCGGAGAGAGAGAGAG 60.747 60.000 35.90 0.00 0.00 3.20
376 413 1.027255 CAACCGCGGAGAGAGAGAGA 61.027 60.000 35.90 0.00 0.00 3.10
701 763 6.375945 TTTGCACATGTACATATCACATCC 57.624 37.500 8.32 0.00 34.39 3.51
715 777 4.725359 TGAGAACATCGAATTTGCACATG 58.275 39.130 0.00 0.00 0.00 3.21
729 791 6.543430 AGACTTTGCTCTATCTGAGAACAT 57.457 37.500 0.00 0.00 45.39 2.71
732 794 5.890985 AGCTAGACTTTGCTCTATCTGAGAA 59.109 40.000 0.00 0.00 45.39 2.87
735 797 5.196695 TCAGCTAGACTTTGCTCTATCTGA 58.803 41.667 9.13 9.13 40.93 3.27
760 822 2.602878 TCTCACGGATTGAAAGCGTAC 58.397 47.619 0.00 0.00 32.21 3.67
769 833 4.194640 ACCAGAAATCATCTCACGGATTG 58.805 43.478 0.00 0.00 35.73 2.67
774 838 3.511699 TCGAACCAGAAATCATCTCACG 58.488 45.455 0.00 0.00 35.73 4.35
794 858 7.455331 CAGAAACAAAATCTGAAACAACCTC 57.545 36.000 0.00 0.00 45.74 3.85
984 1092 6.914757 GCATATTCATTTAACTTCAGAGCACC 59.085 38.462 0.00 0.00 0.00 5.01
992 1100 7.989826 ACACAGGAGCATATTCATTTAACTTC 58.010 34.615 0.00 0.00 0.00 3.01
1045 1154 7.716998 CCCTACTACAGAAAGCACATAAATGAT 59.283 37.037 0.00 0.00 0.00 2.45
1126 1235 7.309621 CCCATTTTCATTCTCATCAAACTCAGT 60.310 37.037 0.00 0.00 0.00 3.41
1494 1616 1.288188 TCCCATCATCAAGGACAGCA 58.712 50.000 0.00 0.00 0.00 4.41
1507 1629 2.562298 TCACTGCCATTTTTGTCCCATC 59.438 45.455 0.00 0.00 0.00 3.51
1713 1835 6.127897 CCAAGGAAACCTAGCATAAGAAAGTG 60.128 42.308 0.00 0.00 31.13 3.16
1836 1958 3.548770 ACCATGTAGAACATCATGCAGG 58.451 45.455 0.00 0.00 36.53 4.85
1965 2088 8.347035 TCCTGTTAGCACAAGTTAAAAACATAC 58.653 33.333 0.00 0.00 30.36 2.39
2340 2463 1.961133 AATTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
2341 2464 1.961133 TAATTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
2342 2465 2.238898 ACTTAATTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
2343 2466 2.026636 CACTTAATTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
2344 2467 2.026636 TCACTTAATTTGGGACGGAGGG 60.027 50.000 0.00 0.00 0.00 4.30
2345 2468 3.007635 GTCACTTAATTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
2346 2469 3.933332 GAGTCACTTAATTTGGGACGGAG 59.067 47.826 7.56 0.00 33.84 4.63
2347 2470 3.325425 TGAGTCACTTAATTTGGGACGGA 59.675 43.478 7.56 0.00 33.84 4.69
2348 2471 3.670625 TGAGTCACTTAATTTGGGACGG 58.329 45.455 7.56 0.00 33.84 4.79
2349 2472 4.755123 AGTTGAGTCACTTAATTTGGGACG 59.245 41.667 0.00 0.00 33.84 4.79
2350 2473 6.635030 AAGTTGAGTCACTTAATTTGGGAC 57.365 37.500 0.00 5.66 35.10 4.46
2351 2474 6.605594 ACAAAGTTGAGTCACTTAATTTGGGA 59.394 34.615 16.35 0.00 35.87 4.37
2352 2475 6.805713 ACAAAGTTGAGTCACTTAATTTGGG 58.194 36.000 16.35 4.33 35.87 4.12
2353 2476 8.621286 AGTACAAAGTTGAGTCACTTAATTTGG 58.379 33.333 16.35 5.04 35.87 3.28
2356 2479 8.989980 GCTAGTACAAAGTTGAGTCACTTAATT 58.010 33.333 0.00 0.00 35.87 1.40
2357 2480 8.368668 AGCTAGTACAAAGTTGAGTCACTTAAT 58.631 33.333 0.00 0.00 35.87 1.40
2358 2481 7.723324 AGCTAGTACAAAGTTGAGTCACTTAA 58.277 34.615 0.00 0.00 35.87 1.85
2359 2482 7.286215 AGCTAGTACAAAGTTGAGTCACTTA 57.714 36.000 0.00 0.00 35.87 2.24
2360 2483 6.163135 AGCTAGTACAAAGTTGAGTCACTT 57.837 37.500 0.00 0.00 38.74 3.16
2361 2484 5.793030 AGCTAGTACAAAGTTGAGTCACT 57.207 39.130 0.00 0.00 0.00 3.41
2362 2485 6.846325 AAAGCTAGTACAAAGTTGAGTCAC 57.154 37.500 0.00 0.00 0.00 3.67
2363 2486 7.723324 ACTAAAGCTAGTACAAAGTTGAGTCA 58.277 34.615 0.00 0.00 36.56 3.41
2413 2536 6.259387 CGTCCCAAAGTAAGTGACTAAACTTT 59.741 38.462 16.00 16.00 41.56 2.66
2414 2537 5.756833 CGTCCCAAAGTAAGTGACTAAACTT 59.243 40.000 7.27 7.27 42.89 2.66
2415 2538 5.295152 CGTCCCAAAGTAAGTGACTAAACT 58.705 41.667 0.00 0.00 37.44 2.66
2416 2539 4.450080 CCGTCCCAAAGTAAGTGACTAAAC 59.550 45.833 0.00 0.00 37.44 2.01
2417 2540 4.344679 TCCGTCCCAAAGTAAGTGACTAAA 59.655 41.667 0.00 0.00 37.44 1.85
2418 2541 3.896888 TCCGTCCCAAAGTAAGTGACTAA 59.103 43.478 0.00 0.00 37.44 2.24
2419 2542 3.499338 TCCGTCCCAAAGTAAGTGACTA 58.501 45.455 0.00 0.00 37.44 2.59
2420 2543 2.299297 CTCCGTCCCAAAGTAAGTGACT 59.701 50.000 0.00 0.00 41.56 3.41
2421 2544 2.612221 CCTCCGTCCCAAAGTAAGTGAC 60.612 54.545 0.00 0.00 0.00 3.67
2422 2545 1.621814 CCTCCGTCCCAAAGTAAGTGA 59.378 52.381 0.00 0.00 0.00 3.41
2423 2546 1.338769 CCCTCCGTCCCAAAGTAAGTG 60.339 57.143 0.00 0.00 0.00 3.16
2424 2547 0.981943 CCCTCCGTCCCAAAGTAAGT 59.018 55.000 0.00 0.00 0.00 2.24
2425 2548 1.207329 CTCCCTCCGTCCCAAAGTAAG 59.793 57.143 0.00 0.00 0.00 2.34
2426 2549 1.272807 CTCCCTCCGTCCCAAAGTAA 58.727 55.000 0.00 0.00 0.00 2.24
2427 2550 0.115745 ACTCCCTCCGTCCCAAAGTA 59.884 55.000 0.00 0.00 0.00 2.24
2428 2551 0.115745 TACTCCCTCCGTCCCAAAGT 59.884 55.000 0.00 0.00 0.00 2.66
2429 2552 0.824759 CTACTCCCTCCGTCCCAAAG 59.175 60.000 0.00 0.00 0.00 2.77
2430 2553 0.115745 ACTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
2431 2554 0.115745 AACTACTCCCTCCGTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
2432 2555 0.324091 GAACTACTCCCTCCGTCCCA 60.324 60.000 0.00 0.00 0.00 4.37
2433 2556 0.033306 AGAACTACTCCCTCCGTCCC 60.033 60.000 0.00 0.00 0.00 4.46
2434 2557 1.064537 AGAGAACTACTCCCTCCGTCC 60.065 57.143 0.00 0.00 45.96 4.79
2435 2558 2.423446 AGAGAACTACTCCCTCCGTC 57.577 55.000 0.00 0.00 45.96 4.79
2436 2559 2.826725 CAAAGAGAACTACTCCCTCCGT 59.173 50.000 0.00 0.00 45.96 4.69
2437 2560 2.166664 CCAAAGAGAACTACTCCCTCCG 59.833 54.545 0.00 0.00 45.96 4.63
2438 2561 3.442076 TCCAAAGAGAACTACTCCCTCC 58.558 50.000 0.00 0.00 45.96 4.30
2439 2562 4.081917 CACTCCAAAGAGAACTACTCCCTC 60.082 50.000 0.00 0.00 45.96 4.30
2440 2563 3.835395 CACTCCAAAGAGAACTACTCCCT 59.165 47.826 0.00 0.00 45.96 4.20
2441 2564 3.579151 ACACTCCAAAGAGAACTACTCCC 59.421 47.826 0.00 0.00 45.96 4.30
2442 2565 4.281182 TCACACTCCAAAGAGAACTACTCC 59.719 45.833 0.00 0.00 45.96 3.85
2443 2566 5.455056 TCACACTCCAAAGAGAACTACTC 57.545 43.478 0.00 0.00 43.39 2.59
2444 2567 5.364157 AGTTCACACTCCAAAGAGAACTACT 59.636 40.000 0.00 0.00 43.39 2.57
2445 2568 5.602628 AGTTCACACTCCAAAGAGAACTAC 58.397 41.667 0.00 0.00 43.39 2.73
2664 2787 6.693315 ACAAAATCCGAACAGAAGAGAAAA 57.307 33.333 0.00 0.00 0.00 2.29
2874 3000 2.222027 CCTCCGTTCCATAATTCTGGC 58.778 52.381 4.99 0.00 36.16 4.85
2890 3016 6.496144 ACAGTAATGGTTAATACTCCCTCC 57.504 41.667 0.00 0.00 30.09 4.30
2939 3065 3.695830 TTAGAGTGTTTACTGCCAGGG 57.304 47.619 0.00 0.00 37.25 4.45
2943 3069 5.063880 CCCCATATTAGAGTGTTTACTGCC 58.936 45.833 0.00 0.00 37.25 4.85
3275 3403 5.104693 TCAGAGAACTGGTTAACAAAGTCCA 60.105 40.000 8.10 0.00 43.60 4.02
3339 3467 2.930950 CAACCCTTCACCTTGTCTTCA 58.069 47.619 0.00 0.00 0.00 3.02
3393 3521 2.155279 GAGACCTTTGCAAGTCCCTTC 58.845 52.381 13.56 3.79 0.00 3.46
3472 3607 4.647424 AAAGTGCGAAAACAGATGGAAA 57.353 36.364 0.00 0.00 0.00 3.13
3487 3622 0.317854 GGTGCGAAGGTGAAAAGTGC 60.318 55.000 0.00 0.00 0.00 4.40
3628 3763 2.348998 CCAGAGCTGGTGGTGGTC 59.651 66.667 8.38 0.00 45.53 4.02
3811 3946 6.527423 TGACTTGCATATCATCATCAGCTTA 58.473 36.000 0.00 0.00 0.00 3.09
3839 3996 3.094572 ACAAGGCTCCAATTTCCTCATG 58.905 45.455 0.00 0.00 0.00 3.07
3958 4123 9.624373 AAAATGCAGATATTGTTCTCTACAGAT 57.376 29.630 0.00 0.00 38.19 2.90
3959 4124 9.453572 AAAAATGCAGATATTGTTCTCTACAGA 57.546 29.630 0.00 0.00 38.19 3.41
4010 4175 3.470645 AAGTAGCACGTCAGGAAGTTT 57.529 42.857 0.00 0.00 0.00 2.66
4020 4185 1.336755 CAAAGCCCAAAAGTAGCACGT 59.663 47.619 0.00 0.00 0.00 4.49
4035 4200 2.709397 TCCCCTATAGTTAGGCCAAAGC 59.291 50.000 5.01 0.00 43.34 3.51
4038 4203 2.091166 TCGTCCCCTATAGTTAGGCCAA 60.091 50.000 5.01 0.00 43.34 4.52
4039 4204 1.500303 TCGTCCCCTATAGTTAGGCCA 59.500 52.381 5.01 0.00 43.34 5.36
4040 4205 2.299326 TCGTCCCCTATAGTTAGGCC 57.701 55.000 0.00 0.00 43.34 5.19
4041 4206 4.886496 ATTTCGTCCCCTATAGTTAGGC 57.114 45.455 0.00 0.00 43.34 3.93
4042 4207 6.015282 AGGTATTTCGTCCCCTATAGTTAGG 58.985 44.000 0.00 0.00 44.17 2.69
4043 4208 7.536159 AAGGTATTTCGTCCCCTATAGTTAG 57.464 40.000 0.00 0.00 0.00 2.34
4044 4209 7.919385 AAAGGTATTTCGTCCCCTATAGTTA 57.081 36.000 0.00 0.00 0.00 2.24
4045 4210 6.819947 AAAGGTATTTCGTCCCCTATAGTT 57.180 37.500 0.00 0.00 0.00 2.24
4046 4211 6.416631 GAAAGGTATTTCGTCCCCTATAGT 57.583 41.667 0.00 0.00 35.79 2.12
4070 4235 2.947652 CCAGGAGGATCGTAACTCGTAA 59.052 50.000 0.00 0.00 37.75 3.18
4071 4236 2.569059 CCAGGAGGATCGTAACTCGTA 58.431 52.381 0.00 0.00 37.75 3.43
4072 4237 1.390565 CCAGGAGGATCGTAACTCGT 58.609 55.000 0.00 0.00 37.75 4.18
4073 4238 0.030908 GCCAGGAGGATCGTAACTCG 59.969 60.000 0.00 0.00 37.82 4.18
4074 4239 0.389757 GGCCAGGAGGATCGTAACTC 59.610 60.000 0.00 0.00 36.89 3.01
4075 4240 1.392710 CGGCCAGGAGGATCGTAACT 61.393 60.000 2.24 0.00 36.89 2.24
4076 4241 1.067582 CGGCCAGGAGGATCGTAAC 59.932 63.158 2.24 0.00 36.89 2.50
4116 4281 3.181468 CCCAAGGACGGTAATAGAGGAAC 60.181 52.174 0.00 0.00 0.00 3.62
4182 4347 0.454600 CCCACGTACGCAGACTACAT 59.545 55.000 16.72 0.00 0.00 2.29
4193 4358 1.000274 ACCGTAGTTGTTCCCACGTAC 60.000 52.381 0.00 0.00 32.66 3.67
4232 4397 2.363795 CGAGGGGGCAGGACTGTA 60.364 66.667 0.82 0.00 0.00 2.74
4262 4427 3.089284 ACAAGGTAAACTGCAATAGGCC 58.911 45.455 0.00 0.00 43.89 5.19
4292 4457 0.179124 TTTGCAGGTTGCCGTTGAAC 60.179 50.000 0.00 0.00 44.23 3.18
4294 4459 0.532573 TTTTTGCAGGTTGCCGTTGA 59.467 45.000 0.00 0.00 44.23 3.18
4319 4484 3.875727 CTCCACTCCACAAATAGATGCAG 59.124 47.826 0.00 0.00 0.00 4.41
4325 4490 2.636830 CTGCCTCCACTCCACAAATAG 58.363 52.381 0.00 0.00 0.00 1.73
4327 4492 0.610232 GCTGCCTCCACTCCACAAAT 60.610 55.000 0.00 0.00 0.00 2.32
4329 4494 2.431683 GCTGCCTCCACTCCACAA 59.568 61.111 0.00 0.00 0.00 3.33
4330 4495 3.640407 GGCTGCCTCCACTCCACA 61.640 66.667 12.43 0.00 0.00 4.17
4331 4496 2.883267 GATGGCTGCCTCCACTCCAC 62.883 65.000 21.03 0.00 39.25 4.02
4332 4497 2.611800 ATGGCTGCCTCCACTCCA 60.612 61.111 21.03 0.00 39.25 3.86
4336 4501 1.076485 ATTGGATGGCTGCCTCCAC 60.076 57.895 28.22 14.88 41.20 4.02
4360 4525 6.964741 AAATGCGATTTGAAATGTATGCAA 57.035 29.167 0.00 0.00 34.45 4.08
4376 4541 4.505808 TCATCCGGTTAGTTAAAATGCGA 58.494 39.130 0.00 0.00 0.00 5.10
4379 4544 9.801873 ATGAATTTCATCCGGTTAGTTAAAATG 57.198 29.630 6.06 0.00 29.59 2.32
4392 4557 4.682860 GCCTATTTGCATGAATTTCATCCG 59.317 41.667 8.95 1.10 34.28 4.18
4394 4559 6.509656 TCAGCCTATTTGCATGAATTTCATC 58.490 36.000 8.95 5.62 34.28 2.92
4412 4577 8.716674 ATCCAAATTGTGATAAATATCAGCCT 57.283 30.769 3.40 0.00 42.84 4.58
4428 4593 9.643693 ACTTTGTGCTATTTTCTATCCAAATTG 57.356 29.630 0.00 0.00 0.00 2.32
4433 4598 8.271458 TGGATACTTTGTGCTATTTTCTATCCA 58.729 33.333 0.00 0.00 36.39 3.41
4453 4618 4.898829 TTTGCATGCTATGTGTGGATAC 57.101 40.909 20.33 0.00 0.00 2.24
4454 4619 7.285172 ACTTAATTTGCATGCTATGTGTGGATA 59.715 33.333 20.33 0.00 0.00 2.59
4481 4646 9.021863 GTCGAGTTTGAGACCTTGTTATATTAG 57.978 37.037 0.00 0.00 0.00 1.73
4484 4649 7.171630 AGTCGAGTTTGAGACCTTGTTATAT 57.828 36.000 0.00 0.00 38.08 0.86
4487 4652 4.931661 AGTCGAGTTTGAGACCTTGTTA 57.068 40.909 0.00 0.00 38.08 2.41
4495 4660 3.872182 CCGAGATCTAGTCGAGTTTGAGA 59.128 47.826 0.00 0.00 39.92 3.27
4502 4667 2.739913 GGACATCCGAGATCTAGTCGAG 59.260 54.545 0.00 0.00 39.92 4.04
4514 4679 5.907207 TGAAAAATTTTGTTGGACATCCGA 58.093 33.333 3.73 0.00 39.43 4.55
4523 4688 6.478344 TGATCCGTTCCTGAAAAATTTTGTTG 59.522 34.615 3.73 0.00 0.00 3.33
4526 4691 6.646240 ACATGATCCGTTCCTGAAAAATTTTG 59.354 34.615 3.73 0.00 0.00 2.44
4527 4692 6.758254 ACATGATCCGTTCCTGAAAAATTTT 58.242 32.000 0.00 0.00 0.00 1.82
4528 4693 6.345096 ACATGATCCGTTCCTGAAAAATTT 57.655 33.333 0.00 0.00 0.00 1.82
4529 4694 5.105756 GGACATGATCCGTTCCTGAAAAATT 60.106 40.000 0.00 0.00 37.88 1.82
4530 4695 4.399303 GGACATGATCCGTTCCTGAAAAAT 59.601 41.667 0.00 0.00 37.88 1.82
4558 4723 3.618690 AACTGAGGGAGAAGTATGTGC 57.381 47.619 0.00 0.00 0.00 4.57
4571 4736 1.466167 CGCTGTTGGATGAAACTGAGG 59.534 52.381 0.00 0.00 32.45 3.86
4572 4737 1.135859 GCGCTGTTGGATGAAACTGAG 60.136 52.381 0.00 0.00 33.84 3.35
4577 4742 0.237235 GAACGCGCTGTTGGATGAAA 59.763 50.000 19.43 0.00 42.09 2.69
4586 4751 0.162933 CATTTACGTGAACGCGCTGT 59.837 50.000 5.73 1.79 44.43 4.40
4587 4752 0.518355 CCATTTACGTGAACGCGCTG 60.518 55.000 5.73 1.02 44.43 5.18
4590 4755 1.225908 GGCCATTTACGTGAACGCG 60.226 57.895 3.53 3.53 44.43 6.01
4592 4757 0.094046 GACGGCCATTTACGTGAACG 59.906 55.000 2.24 0.40 44.24 3.95
4595 4760 1.078988 GGGACGGCCATTTACGTGA 60.079 57.895 11.00 0.00 44.24 4.35
4611 4776 4.029809 GAACCACGGGTGAGGGGG 62.030 72.222 0.00 0.00 35.34 5.40
4614 4779 1.147376 TGTTGAACCACGGGTGAGG 59.853 57.895 0.00 0.00 35.34 3.86


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.